Boolean network models are one of the simplest models to study complex dynamic behavior
in biological systems. They can be applied to unravel the mechanisms regulating the …

Mathematical modeling of biological processes provides deep insights into complex cellular
systems. While quantitative and continuous models such as differential equations have been …

As the amount of biological data in the public domain grows, so does the range of modeling
and analysis techniques employed in systems biology. In recent years, a number of …

The logical (or logic) formalism is increasingly used to model regulatory and signaling
networks. Complementing these applications, several groups contributed various methods …

Given the complexity and interactive nature of biological systems, constructing informative
and coherent network models of these systems and subsequently developing efficient …

The biomolecules inside or near cells form a complex interacting system. Cellular
phenotypes and behaviors arise from the totality of interactions among the components of …

A probabilistic Boolean network (PBN) is a discrete-time system composed of a family of
Boolean networks (BNs) between which the PBN switches in a stochastic fashion. Studying …

Irreversibility, in which a transient perturbation leaves a system in a new state, is an
emergent property in systems of interacting entities. This property has well-established …

Computational modeling constitutes a crucial step toward the functional understanding of
complex cellular networks. In particular, logical modeling has proven suitable for the …

Quantitative systems pharmacology (QSP) is an emerging discipline that aims to discover
how drugs modulate the dynamics of biological components in molecular and cellular …